TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2896c/-:

update plot	correlation	link to info on gene
Rv1961/-	(cc=0.4625)	info on Rv1961/-
Rv0976c/-	(cc=0.4607)	info on Rv0976c/-
Rv2159c/-	(cc=0.4461)	info on Rv2159c/-
Rv3292/-	(cc=0.446)	info on Rv3292/-
Rv2012/-	(cc=0.426)	info on Rv2012/-
Rv0897c/-	(cc=0.4057)	info on Rv0897c/-
Rv0992c/-	(cc=0.404)	info on Rv0992c/-
Rv0994/moeA1	(cc=0.4033)	info on Rv0994/moeA1
Rv1452c/PE_PGRS28	(cc=0.3929)	info on Rv1452c/PE_PGRS28
Rv0222/echA1	(cc=0.3881)	info on Rv0222/echA1

Correlation of Rv2896c/- with Rv0992c/-

Normalized LFCs for Rv2896c/-:
(description and provenance of datasets)

	Rv2896c/-	Rv0992c/-
Fe_supp_jason_reseq	-0.685	-1.759
low_pH_jason_reseq	-0.932	-0.81
NO_jason_reseq	0.263	0.751
B6_jason_reseq	-0.482	0.641
MHCII_jason_reseq	-0.754	0.115
Isoniazid02	0.764	-0.071
Rifampicin4	-0.181	0.774
Ethambutol3	0.188	0.039
Meropenem3	0.114	3.544
Vancomycin16	0.058	0.409
Rv2680_day32	-0.456	-0.321
H37Rv_KO_MarP	-0.051	-0.416
hypoxia_3wks	-0.287	-1.806
hypoxia_6wks	-0.624	-2.059
glycerol	1.546	1.052
cholesterol	0.503	0.916
AJ	-0.128	-0.185
Bibs02	0.654	0.672
Bibs02c	-0.115	0.045
BL6	0.637	0.097
BL6a	0.103	-0.453
BXD01	-0.299	-0.987
BXD010	-0.223	-1.362
BXD011	-0.269	-0.881
BXD03	-0.562	-0.798
BXD04	0.256	-1.534
BXD05	0.261	0.281
BXD06	-0.173	-1.064
BXD07	0.082	-0.978
BXD08	0.117	-1.336
BXD09	-0.182	-1.199
CAST	-0.108	0.075
CCcont	-0.035	-1.166
DS01	0.674	0.946
DS02	0.767	0.581
DS04	0.706	0.44
DS0c	0.607	0.635
GP01	0.022	0.525
GP02	0.98	-0.612
GP0c	0.465	-0.009
NOD	0.792	-0.242
NZO	-0.078	0.155
PWK	-0.413	0.828
H37Rv_KO_CtpC	0.386	2.265
H37Rv_KO_CtpD	0.78	0.861
H37Rv_KO_Rv1272	-0.435	0.488
H37Rv_KO_SugABC	-1.474	-0.862
H37Rv_KO_MbtN	0.529	0.402
Trans05	-0.377	0.435
macrophage_unactivated	0.18	-1.177
IL1	0.516	-0.291
Rapamycin	0.206	-0.973
Tcell	-0.329	0.042
GMCSF	-0.351	-0.499
IFNab	-0.121	-0.84
IFNg	0.489	-0.869
IFNg_GMCSF1	0.179	-0.874
Rv1432_day32	0.738	1.463
Rv1565c_day32	0.491	0.667
secA2_input	0.435	0.214
delta_Rv3594	-0.286	-0.514
delta_Rv3717	0.083	0.311
delta_Rv3811	0.0	0.281
delta_Rv0954	-0.261	-0.36
PonA1	-0.485	0.115
EccD1_KO	-0.145	0.204
EspI_KO	-0.083	0.742
PE35_KO	0.545	-0.073
PPE68_KO	0.518	0.243
glycerol2	-0.303	-1.739
lignocerate	0.558	0.251
oleate	-0.072	-0.615
phosphatidylcholine	0.31	-0.315
acetate	0.472	0.362
glucAc	0.304	0.785
Rv0950ko	0.172	0.078
Rv1096ko	0.829	0.998
Rv3684ko	0.576	1.51
delta_otsA_trehalose	-0.416	0.366